*"Run MAPPFinder" was clicked and the program was allowed to complete its analysis

*"Show Ranked List" was clicked to see a list of the most significant Gene Ontology terms

−

*'''Top 10 Ranked GO Terms'''

*'''Top 10 Ranked GO Terms, found using the 2009 Database'''

#biopolymer biosynthetic process

#macromolecule biosynthetic process

**Thiamin was found to be a vitamin (vitamin B1), that is utilized by many organisms, including gram-negative bacteria like ''Vibrio cholerae''

**Given this UniProt result, it appears that the gene codes for a protein that binds to thiamin and employs ATP to move it across membranes (is a transmembrane protein that works via active-transport)

−

====Working with the Results File====

===Working with the Results File===

*The results file, in the format "XXX-CriterionX-GO.txt" was copied and pasted in the folder housing all of the files related to this investigation (XXX = name given to file, CriterionX refers to the Criterion #; Criterion0 refers to the Increased criterion, Criterion1 refers to the Decreased criterion, if the Increased criterion was done first)

*The "CriterionGO" file was opened via Excel in order to show the results in a tabular format

−

*The top rows of the opened file (in Excel) were examined; these are rows of information that give background information as to how MAPPFinder made the calculations

*The top rows of the opened file (in Excel) were examined; these are rows of information that give background information as to how MAPPFinder made the calculations:

**[[File:MAPPFINDER INFO BL.png]]

*Comparing the top rows from the '''2010 Database''' to those found by my partner, Anu, using the '''2009 Database''', it was noticed that:

**The numbers for ''probes meeting the filter linked to a UniProt ID'', ''for genes meeting the criterion linked to a GO term'', ''probes linked to a UniProt ID'', ''genes linked to a GO term'', and ''The z score is based on an N of... and a R of...'' were higher in what was found by Anu than what was found using the older database. This difference is likely due to the fact that the 2010 database covers more genes (less errors) and, thus, would lead to more genes being linked to GO terms and UniProt ID's. The smaller amounts of linked probes/genes was likely responsible for the smaller numbers (last row) that are involved in the z score calculations by MAPPfinder.

*The list in the file was filtered in order to show the top GO terms represented in the data for the "Increased" criterion

*A cell was clicked in the row of headers and the autofilter was turned on (Data menu -> Filter > Autofilter)

Exception encountered, of type "Error"
[6f6b7b07] /biodb/fall2015/index.php?diff=3475&oldid=3356&title=Blitvak_Week_8 Error from line 434 of /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php: Call to undefined function each()
Backtrace:
#0 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(544): DiffEngine->diag()
#1 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(344): DiffEngine->compareSeq()
#2 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(227): DiffEngine->diffLocal()
#3 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(721): DiffEngine->diff()
#4 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(859): Diff->__construct()
#5 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(980): MappedDiff->__construct()
#6 /apps/xmlpipedb/biodb/fall2015/includes/diff/TableDiffFormatter.php(194): WordLevelDiff->__construct()
#7 /apps/xmlpipedb/biodb/fall2015/includes/diff/DiffFormatter.php(140): TableDiffFormatter->changed()
#8 /apps/xmlpipedb/biodb/fall2015/includes/diff/DiffFormatter.php(111): DiffFormatter->block()
#9 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(888): DiffFormatter->format()
#10 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(802): DifferenceEngine->generateTextDiffBody()
#11 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(733): DifferenceEngine->generateContentDiffBody()
#12 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(662): DifferenceEngine->getDiffBody()
#13 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(632): DifferenceEngine->getDiff()
#14 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(453): DifferenceEngine->showDiff()
#15 /apps/xmlpipedb/biodb/fall2015/includes/page/Article.php(795): DifferenceEngine->showDiffPage()
#16 /apps/xmlpipedb/biodb/fall2015/includes/page/Article.php(506): Article->showDiffPage()
#17 /apps/xmlpipedb/biodb/fall2015/includes/actions/ViewAction.php(44): Article->view()
#18 /apps/xmlpipedb/biodb/fall2015/includes/MediaWiki.php(395): ViewAction->show()
#19 /apps/xmlpipedb/biodb/fall2015/includes/MediaWiki.php(273): MediaWiki->performAction()
#20 /apps/xmlpipedb/biodb/fall2015/includes/MediaWiki.php(566): MediaWiki->performRequest()
#21 /apps/xmlpipedb/biodb/fall2015/includes/MediaWiki.php(414): MediaWiki->main()
#22 /apps/xmlpipedb/biodb/fall2015/index.php(44): MediaWiki->run()
#23 {main}